RNA-seq analysis Post: 302769265

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1. Shell Programming and Scripting

script to loop and check jumping seq.

Hi, Normally, I will manually to use "ll" command to list the following file from \FILE\CACHE\ directory and check the jump seq. Can I write a script to loop or/and check jump seq file (if jumped seq and show "missing seq no" message for me) -rw-rw----+ 1 user develop 14012 Sep 4...

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Move and rename files in seq. with padded digits

Greetings, I am new to scripting, but find if I can see the code working for a given problem, then I can eventually figure it out.

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declaring variable with for $(seq)

Hi guys. i have the following script: 1 #!/bin/bash 2 linkcount=$(grep "/portal" tickets | wc -l) 3 grep "/portal" tickets > links 4 for i in $(seq 1 $linkcount); do 5 echo "BLYAT" 6 let link$i=$(sed -n "$i"p links) 7 echo $ 8 done the problem is, that "let" can`t...

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Using Seq As A Variable With Padded Digits

Hi all. Im trying to use a sequence in a while loop like this below. I need it for navigating a year, month, day folder structure where a user can input the start date and have it go to the desired end date. The script will grab a certain file on each day then move onto the next. Ive got all that...

5. Shell Programming and Scripting

Using seq (Or alternative)

I usually just browse the forum/google for answers, however I've been stuck on a problem for a number of hours now and I've decided to join up and actually ask I've searched the forum ad naseum in an attempt to find answer to my query, however so far I have been unsuccessful. I'm no expert...

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Help with seq (print a series of dates)

Assuming one does not have such luxuries as bash, zsh, jot, rs, perl, etc. what is the most elegant way to print out a formatted date series like this: 01-01-2010 01-02-2010 01-03-2010 ... 02-01-2010 02-02-2010 ... Can I accomplish this with just basic shell builtins and seq, or...

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sorting a fixed width seq file

I have a file like this... 2183842512010-11-25 15379043 453130325 2386225062010-11-30 4946518 495952336 2386225062010-11-30 4946518 495952345 2386225062010-11-25 262066688 -516224026 2679350512010-11-25 262066688 -516224124 3196089062010-11-25 262066688 203238229...

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How to show first 0 using seq or +1 count?

Greetings, Using linux based OS and KSH. I m trying to make a simple script to parse some logs to show a count per hour on a specific alarm starting from midnight to the current hour. So I format my "HOUR" variable to show the current time and so I can use it in the following bit of code....

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awk command to find seq lines

I have a below file FILE.cfg JAN_01 VAR1=4 VAR2=SUM VAR3=PRIVATE JAN_10 VAR1=44 VAR2=GUN VAR3=NATUR JAN_20 VAR1=3 VAR2=TQN VAR3=COMMA code: (JAN_10 is argument passed from script)

10. Shell Programming and Scripting

Easy seq Question

Hi! I'm trying to do this: 1 - 2 - 3 - 4 - 5 - I'm using seq for this: seq 1 20 > filename.txt How do I get the "-"? I've tried -f per man but can't get anything to work. Also, is there an easier or better way than using sequence? Thanks!

LEARN ABOUT DEBIAN

pc-compare

PC-COMPARE(1)							  Probcons Manual						     PC-COMPARE(1)

NAME

       pc-compare - Program for scoring alignments according to a reference alignment with respect to sum-of-pairs and column scores.

SYNOPSIS

       pc-compare [TEST_ALIGNMENT] [REFERENCE_ALIGNMENT] [BALIBASE_ANNOT_FILE] [-col] [-core] [-caps] [-annot FILENAME]

NOTE

       pc-compare is named compare in the original sources, but has been remamed to avoid collision with other program names.

SEE ALSO

       pc-makegnufile(1), pc-project(1),from the probcons-extra package, and probcons(1) and probcons-RNA(1) from the probcons package.

REFERENCE

       Please cite Do, C.B., Mahabhashyam, M.S.P., Brudno, M., and Batzoglou, S. 2005. PROBCONS: Probabilistic Consistency-based Multiple Sequence
       Alignment. Genome Research 15: 330-340.

AUTHORS

       Chuong Do <chuongdo@cs.stanford.edu>
	   Wrote probcons in collaboration with Michael Brudno in the research group of Serafim Batzoglou, Department of Computer Science,
	   Stanford University.

       Charles Plessy <charles-debian-nospam@plessy.org>
	   Wrote this manpage in DocBook XML for the Debian distribution.

COPYRIGHT

       This program and its manpage are in the public domain.

pc-compare 1.12 						    2007-04-04							     PC-COMPARE(1)

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

script to loop and check jumping seq.

Discussion started by: happyv

2. Shell Programming and Scripting

Move and rename files in seq. with padded digits

Discussion started by: rocinante

3. Shell Programming and Scripting

declaring variable with for $(seq)

Discussion started by: neverhood

4. Shell Programming and Scripting

Using Seq As A Variable With Padded Digits

Discussion started by: Grizzly